Pig pangenome graph reveals functional features of non-reference sequences.

ABSTRACT:

Background

The reliance on a solitary linear reference genome has imposed a significant constraint on our comprehensive understanding of genetic variation in animals. This constraint is particularly pronounced for non-reference sequences (NRSs), which have not been extensively studied.

Results

In this study, we constructed a pig pangenome graph using 21 pig assemblies and identified 23,831 NRSs with a total length of 105 Mb. Our findings revealed that NRSs were more prevalent in breeds exhibiting greater genetic divergence from the reference genome. Furthermore, we observed that NRSs were rarely found within coding sequences, while NRS insertions were enriched in immune-related Gene Ontology terms. Notably, our investigation also unveiled a close association between novel ge

SUBMITTER: Miao J 

PROVIDER: S-EPMC10882747 | biostudies-literature | 2024 Feb

REPOSITORIES: biostudies-literature